X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.5
Temperature 293.0
Details 0.1M Bis-tris, 2M ammonium Sulfate, 0.1M Lithium Chloride, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 138.09 α = 90
b = 138.09 β = 90
c = 77.21 γ = 120
Symmetry
Space Group P 62 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M Mirrors 2011-12-08
Diffraction Radiation
Monochromator Protocol
SI-III SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 0.9791 NSLS X25

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.3 50 98.4 0.1 -- -- 51.5 19462 19462 -- 0.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.3 2.38 100.0 0.5 -- 3.0 51.5 1915

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.3 39.86 0.0 -- 19462 18350 990 97.88 -- 0.16887 0.16699 0.20471 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.3 2.36 -- 82 1330 0.162 0.186 -- 99.65
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.791
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.03
r_mcbond_it 1.41
r_scbond_it 4.676
r_angle_refined_deg 2.186
r_gen_planes_refined 0.012
r_dihedral_angle_4_deg 21.586
r_chiral_restr 0.154
r_dihedral_angle_2_deg 33.297
r_mcangle_it 2.518
r_dihedral_angle_3_deg 18.056
r_scangle_it 7.51
r_dihedral_angle_1_deg 6.7
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1780
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 182

Software

Software
Software Name Purpose
CBASS data collection
MOLREP phasing
CCP4 model building
ARP/wARP model building
Coot model building
REFMAC refinement version: 5.5.0109
HKL-2000 data reduction
HKL-2000 data scaling
CCP4 phasing